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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgtgtttcatagatatcacaagtttgtatttgtttccaactttcttgttgttccttttgtcagacagaaatgttcttaggatattttttctttggacagATCAAAATACAACAGCATTCAAAGAAGTAGCAATTATTAGTCATCCCCGTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAG

Basic information

species Zea mays
transcript GRMZM2G073415_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G073415_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g36110.2 (Oryza sativa), 3'ss of exon 4
--------ttgtgtttcatagatatcacaagtttgtatttgtttccaactttcttgttgttccttttgtcagacagaaatgttcttaggatattttttctttggacagATCAAAATACAACAGCATTCAAAGAAGTAGCAATTATTAGTCATCCCCGTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAG
        |  ||| ||||    ||||  |  ||  |   |||||||||||| ||||  ||| |||| |||  ||||| | ||  |    ||||| || ||  |||||||||||||||||| ||||| |||||||| ||||| ||||||||||||||| ||||||||||||| ||||||||||||||||| || ||| | ||||||
tgataggttaatgtatcattttaatcattatattacaa--gtttccaactttgttgtaattcattttctcaaccagaattttttct----tatttcttatt--gacagATCAAAATACAACGGCATTTAAAGAAGTTGCAATAATTAGTCATCCCCGTATTGGTGAATATGCATTTGGATTCATAACATCGACGATGATCCTTCAG

upper sequence: GRMZM2G073415_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g36110.4 (Oryza sativa), 3'ss of exon 4
--------ttgtgtttcatagatatcacaagtttgtatttgtttccaactttcttgttgttccttttgtcagacagaaatgttcttaggatattttttctttggacagATCAAAATACAACAGCATTCAAAGAAGTAGCAATTATTAGTCATCCCCGTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAG--
        |  ||| ||||    ||||  |  ||  |   |||||||||||| ||||  ||| |||| |||  ||||| | ||  |    ||||| || ||  |||||||||||||||||| ||||| |||||||| ||||| ||||||||||||||| ||||||||||||| ||||||||||||||||| || ||| | ||||||  
tgataggttaatgtatcattttaatcattatattacaa--gtttccaactttgttgtaattcattttctcaaccagaattttttct----tatttcttatt--gacagATCAAAATACAACGGCATTTAAAGAAGTTGCAATAATTAGTCATCCCCGTATTGGTGAATATGCATTTGGATTCATAACATCGACGATGATCCTTCAGGT

upper sequence: GRMZM2G073415_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA04G39490.1 (Glycine max), 3'ss of exon 4
---ttgtgtt-tcatagatatcacaagtttgtatttgtttccaactttcttgttgttccttttgtcagacagaaatgttcttaggatattttttctttggacagATCAAAATACAACAGCATTCAAAGAAGTAGCAATTATTAGTCATCCCCGTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAG
    || ||| |  | ||||    |    |  |    |||| ||  ||  |        | |   ||    |  ||| | ||   | | | |   |||   ||||||||||||| || || || ||||| |||||||||||  |||| || ||||||||||||||||| ||||| || || ||||||||  |  |||| |||
tcagtgagttattgttgatacttgatagattgacgattttcaaatattggtaccaaggatgtaaccat-ttgtcatgatttttttacaatctcctttt---cagATCAAAATACCACTGCCTTTAAAGAGGTAGCAATTATCCGTCACCCGCGTGTTGGTGAATATGCATTTGGCTTTATTACATCAACTGTTATTCTACAG

upper sequence: GRMZM2G073415_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA06G15360.2 (Glycine max), 3'ss of exon 4
-ttgtgtt-tcatagatatcacaagtttgtatttgtttccaactttcttgttgttccttttgtcagacagaaatgttcttaggatattttttctttggacagATCAAAATACAACAGCATTCAAAGAAGTAGCAATTATTAGTCATCCCCGTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAG
  || ||| |  | |||||   |    |  |    |||| ||  ||  ||       | |   ||      |   || ||    ||  ||||||||   ||||||||||||| || || || ||||| |||||||||||  |||| || |||||||||||||||||||||||||| || ||||||||  |   ||| |||
agtgagttattgttgatatttgatagattgacaattttcaaatattggtgacaaggatgtaaccatttgtcatgattttttttttaaattttctttt--cagATCAAAATACCACTGCCTTTAAAGAGGTAGCAATTATCCGTCACCCGCGTGTTGGTGAATATGCGTTTGGATTTATTACATCAACTGTTACTCTACAG

upper sequence: GRMZM2G073415_T03 (Zea mays), 3'ss of exon 5
lower sequence: Vv07s0031g02010.t01 (Vitis vinifera), 3'ss of exon 4
ttgtgtttcatag-atatcacaagtttgtatttgtttccaactttcttgtt--gttccttttgtcagacagaaatgttcttaggatattttttctttggacagATCAAAATACAACAGCATTCAAAGAAGTAGCAATTATTAGTCATCCCCGTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAG
    |  | || |     ||   |||| ||| |||     ||  | ||     ||   | |  | || |  |||  ||      |  ||  |  | |   |||| |||||||| || || || ||||| ||||| || ||  ||||||| ||||||||||||||||| ||||| || || ||||||||  |  | ||||||
---agcataattgtgctccatgtgtttatatatgtggtttacaatgttagcaagtgtttataattagcctaaaacttttaagtcactttcgtattctttgcagACCAAAATACCACTGCTTTTAAAGAGGTAGCTATCATCCGTCATCCACGTGTTGGTGAATATGCATTTGGTTTTATTACATCAACAGTAATCCTTCAG

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|149096886|gb|EE182683.2|EE182683
EST:     TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
genomic: TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
EST: gi|76291081|gb|DV030649.1|DV030649
EST:     TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
genomic: TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
EST: gi|67012407|gb|CO441156.1|CO441156
EST:     TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
genomic: TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
EST: gi|60341304|gb|DN208277.1|DN208277
EST:     TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
genomic: TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
EST: gi|76291080|gb|DV030648.1|DV030648
EST:     TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
genomic: TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
EST: gi|91055827|gb|EB166245.1|EB166245
EST:     TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
genomic: TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
EST: gi|149104749|gb|EE290203.2|EE290203
EST:     TACTCTGCATCAAAGCAAGTTAGTATTGCTGTT
genomic: TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
EST: gi|148971483|gb|EE022178.2|EE022178
EST:     TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
genomic: TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
EST: gi|60347004|gb|DN213977.1|DN213977
EST:     TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
genomic: TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
EST: gi|211119697|gb|FL001617.1|FL001617
EST:     TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT
genomic: TACTCTGCATCAAAGCAAGTTAGTACTGCTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttgttccttttgtcagacagaaatgttcttaggatattttttctttggacagATCAAAATACAACAGCATTCAAAGAAGTAGCAATTATTAGTCATCCCCGTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAG
                                     tattttttcttt  CT-rich tract
                                    atattttttcttt  TA-rich tract